Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  STRUCTURE OF THE ENDOGLYCOSIDASE-H TREATED L1-CR DOMAINS OF THE HUMAN INSULIN RECEPTOR IN COMPLEX WITH RESIDUES 697-719 OF THE HUMAN INSULIN RECEPTOR (A-ISOFORM)
 
Authors :  J. G. Menting, C. F. Lawrence, G. K. -W. Kong, M. C. Lawrence
Date :  22 Jan 15  (Deposition) - 10 Jun 15  (Release) - 22 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  E,F
Biol. Unit 1:  E,F  (1x)
Biol. Unit 2:  E,F  (6x)
Keywords :  Insulin Receptor, Insulin Micro-Receptor, Hormone-Hormone Receptor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. G. Menting, C. F. Lawrence, G. K. Kong, M. B. Margetts, C. W. Ward, M. C. Lawrence
Structural Congruency Of Ligand Binding To The Insulin And Insulin/Type 1 Insulin-Like Growth Factor Hybrid Receptors.
Structure V. 23 1271 2015
PubMed-ID: 26027733  |  Reference-DOI: 10.1016/J.STR.2015.04.016

(-) Compounds

Molecule 1 - INSULIN RECEPTOR
    Chains: E
    EC Number: 2.7.10.1
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Cell Line: LEC 8 MUTANT CHO CELL
    Expression System Taxid: 10029
    Fragment: L1-CR, UNP RESIDUES 28-377
    Gene: INSR
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IR
 
Molecule 2 - INSULIN RECEPTOR
    Chains: F
    EC Number: 2.7.10.1
    Engineered: YES
    Fragment: ALPHA-CT PEPTIDE, UNP RESIDUES 697-719
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Other Details: CHEMICAL SYNTHESIS
    Synonym: IR
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : EF
Biological Unit 1 (1x): EF
Biological Unit 2 (6x): EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1FUC1Ligand/IonALPHA-L-FUCOSE
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1FUC1Ligand/IonALPHA-L-FUCOSE
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (3, 42)
No.NameCountTypeFull Name
1FUC6Ligand/IonALPHA-L-FUCOSE
2NAG24Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO412Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG E:135 , THR E:172 , ARG E:181 , HIS E:209binding site for residue SO4 E 406
2AC2SOFTWARESER E:85 , ARG E:86 , LEU E:87 , ARG E:114 , HIS E:280 , ASN E:281binding site for residue SO4 E 407
3AC3SOFTWAREGLU E:6 , GLU E:24 , ASN E:25binding site for Mono-Saccharide NAG E 401 bound to ASN E 25
4AC4SOFTWAREASN E:111 , SER E:134 , ARG E:135 , ASP E:138 , SER E:198 , LEU E:213 , ARG E:229binding site for Mono-Saccharide NAG E 403 bound to ASN E 111
5AC5SOFTWAREASN E:108 , LYS E:190 , ASN E:215binding site for Mono-Saccharide NAG E 402 bound to ASN E 215
6AC6SOFTWAREASP E:234 , ASN E:255binding site for Poly-Saccharide residues NAG E 404 through FUC E 405 bound to ASN E 255

(-) SS Bonds  (13, 13)

Asymmetric Unit
No.Residues
1E:8 -E:26
2E:126 -E:155
3E:159 -E:182
4E:169 -E:188
5E:192 -E:201
6E:196 -E:207
7E:208 -E:216
8E:212 -E:225
9E:228 -E:237
10E:241 -E:253
11E:259 -E:284
12E:288 -E:301
13E:304 -E:308

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro E:243 -Pro E:244

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XST)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XST)

(-) Exons   (0, 0)

(no "Exon" information available for 4XST)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain E from PDB  Type:PROTEIN  Length:287
                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee..hhhhhhhh.eeeeeeeeeeeee...hhhhhhh.......ee...eeeeee..............ee........eeeeee..............ee...eeeeeee.........hhhhh.......eeeee..............eee..eee..eee..ee....hhhhhhhh..............................eee..eee.......eee...eeehhhhhhhhhhh...eee..eee......eee......eee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xst E   5 GEVCPGMDIRNNLTRLHELENCSVIEGHLQILLMFKTRPEDFRDLSFPKLIMITDYLLLFRVYGLESLKDLFPNLTVIRGSRLFFNYALVIFEMVHLKELGLYNLMNITRGSVRIEKNNELCYLATIDWSRILDSVEDNHIVLNKDDECGDICPNCPATVINGQFVERCWTHSHCQKVCPTICKSHGCTAEGLCCHSECLGNCSQPDDPTKCVACRNFYLDGRCVETCPPPYYHFQDWRCVNFSFCQDLHHKHQYVIHNNKCIPECPSGYTMNSSNLLCTPCLGPCP 309
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144      |156   ||  173       183       193       203       213       223       233       243       253       263 ||    282       292       302       
                                                                                                                                                                            151|   160|                                                                                              265|                                  
                                                                                                                                                                             154    168                                                                                               275                                  


Chain F from PDB  Type:PROTEIN  Length:16
                                                
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                 4xst F 698 ESSFRKTFEDYLHNVV 713
                                   707
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4XST)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XST)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XST)

(-) Gene Ontology  (103, 154)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    FUC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NAG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Pro E:243 - Pro E:244   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4xst
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  INSR_HUMAN | P06213
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  INSR_RAT | P15127
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.7.10.1
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  INSR_HUMAN | P06213
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  INSR_RAT | P15127
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        INSR_HUMAN | P06213: 1gag 1i44 1ir3 1irk 1p14 1rqq 2auh 2b4s 2hr7 2mfr 2z8c 3bu3 3bu5 3bu6 3ekk 3ekn 3eta 3w11 3w12 3w13 3w14 4ibm 4oga 4xlv 4xss 4zxb 5e1s 5hhw 5j3h

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4XST)